- Transcript BART1_0-u33637.019
- Transcript IDBART1_0-u33637.019
- Gene IDBART1_0-u33637
Barley RTD
Exon Structure of BART1_0-u33637.019
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr5H | 1 | 84473806 | 84473677 | + |
| chr5H | 2 | 84474019 | 84473884 | + |
| chr5H | 3 | 84476025 | 84475935 | + |
| chr5H | 4 | 84479142 | 84477550 | + |
| chr5H | 5 | 84480117 | 84479843 | + |
| chr5H | 6 | 84480655 | 84480237 | + |
| chr5H | 7 | 84480831 | 84480728 | + |
| chr5H | 8 | 84483365 | 84483169 | + |
| chr5H | 9 | 84483994 | 84483785 | + |
| chr5H | 10 | 84490295 | 84489767 | + |
| chr5H | 11 | 84491799 | 84491518 | + |
| chr5H | 12 | 84493203 | 84492482 | + |
grey: non-coding, green: Barley Morex IBSC 2017 Transcript CDS, red: Barley RTD exons
Salmon TPM Values: sixteensamplesmorex
These TPM values were generated by using the RNA-seq data from a 16-tissue experiment in Morex (published here) were calculated using Salmon (version Salmon-0.8.2) using BaRTv1.0-QUASI as the reference transcript dataset. Click here for more information about the RNA-seq experiment and materials
| Sample | Treatment | Rep 1 | Rep 2 | Rep 3 |
|---|---|---|---|---|
| morex | EMB | 0 | 0 | 0 |
| morex | ETI | 0 | 0 | 0 |
| morex | LEA | 0 | 0 | 0 |
| morex | EPI | 0 | 0 | 0 |
| morex | ROO | 0 | 0 | 0 |
| morex | ROO2 | 0 | 0 | 0 |
| morex | NOD | 0 | 0 | 0 |
| morex | RAC | 0 | 0 | 0 |
| morex | INF1 | 0 | 0 | 0 |
| morex | INF2 | 0 | 0 | 0 |
| morex | CAR5 | 0 | 0 | 0 |
| morex | CAR15 | 0 | 0 | 0 |
| morex | LEM | 0 | 0 | 0 |
| morex | LOD | 0 | 0 | 0 |
| morex | PAL | 0 | 0 | 0 |
| morex | SEN | 0 | 0 | 0 |
Homology to Model Species (BLASTX to E-value < 1e-30)
| Database | Hit | Frame | E-value | Score | % Identity | Description |
|---|---|---|---|---|---|---|
| Rice PP7 | LOC_Os03g38740.1 | +3 | 0.0 | 968 | 483/724 (67%) | protein|Dicer, putative, expressed |
| TAIR PP10 | AT3G03300 @ ARAPORT AT3G03300.3 @ TAIR |
+3 | 5e-169 | 450 | 276/733 (38%) | Symbols: DCL2 | dicer-like 2 | chr3:768020-774833 REVERSE LENGTH=1388 |
| BRACH PP3 | Bradi1g15440.1.p | +3 | 0.0 | 1041 | 527/724 (73%) | pacid=32792173 transcript=Bradi1g15440.1 locus=Bradi1g15440 ID=Bradi1g15440.1.v3.1 annot-version=v3.1 |
Barley PseudoMolecules GBrowse
Click here to see more tracks within GBrowse -->
grey: non-coding, green: Barley Morex IBSC 2017 Transcript CDS, red: Barley RTD exons
CDS Sequence (4688 bp)
>BART1_0-u33637.019 4688 150831_barley_pseudomolecules TTAGCATTTAAAAGTCCTCAAGGCAAATCTACATGGATCGTCTCGGAAAAATGCGAAGAA AGGGATATCAAAATTACACAAGGCATTCTTATATTGCACGGCTAATCTTGGAGTATGGCT AGCGGCAAAGGCTGCTGAGATACACTCAACAACTAACGAACAATTCTTATCTTTCTGGGG TGAAGAACTGGATAAGAATGTTGAAGGCTTTGTTAGAAGCTATAGTGAAGAAGTATACAG GGAACTCTCATGTTTTTCAGAGAGAGGTCATATTGGTAAAGATTTTGAAGCTGATTTGCA AGATGGGTTATTGACACCTAAAGTTCATTGTCTTGTTCAGTTTCTTCTGGAATACAGGTA CATATAATTGTGACCACACAAGTATTGGAGGAGGGGCTGAATGTGCCAGGTTGTCACTTA GTAATTCGCTTTGATCCACCAACGACTGGGCGCAGCTTTATACAGTCACGTGGTCGAGCT CGGATGCCAAACTCTGAATATGTTTTACTTGTTAGAAGGCACGTCCTTCGATTTTTGTTG CTATTTTTTTGTTTCCAGCGCAAATTTTATTTAATTGTTCATCTTCATGCAAATTAAAAT CTTTGTCTTCTGTATTGTGGACATTATCCACCTCTTTTCCCACTTCATCAGTTGAATATG ATGTGCTCAGTATATAATCCTTGGTCACTAGTACCAGTAAATTGTTGTTTACCTATATTA CTCAGTGTGTTCCGTTTATCAGTTGAATTGTTTATATTGGATTAAGCATACTGGGCTGGG TGTTAAATGCTAGTGTTCACTTACTATTGTGAGATGACTTGATGTGACTGCCGGTATGAC TCCAAATCCTGATATGGTCAAACCTGAAACAATTGATAAATGCCAAGTTCAAAAGCCACT TGTTTGCTTTTTCATTAAGAATCTAAAATTGACTAGTGTTTCCTAGTGTTCACTTAATAT TGCAAGTTGGCGTGATGTGAGTGCCGTTATGATACCAAATCCTGATATGTTTTCCTGTCA GATCTGTATGGAAACCGCAGGTAACCATAACATGATAAGGATCTGTTTTCAATCGAGACA ACTGTTCATATTTGAGTAGAAAACCGTCCGACTTTTTGCTCGGTTATTGGTGGAAACTAG TCAGCACTTATGATTATTGTCAGTGAGCTGTGAATTCTATTCCTACTGATTACATTTCTC TATTTAGCTATACAAAAAATGTGGACTCGTGCTACAGTGGAAAAATCGCTATACTCAAGT TGTCTTAAGTTGATTTATTAGTACAGTTTCCTCTTGTATTGCAAAAAAACCCTACTTTAC CTTTGTTCTCATCATCACTTCTAGCTCTTTTTGGCATGCTACGTAACATGATGATGCAAT GCTTGTGTTTCTGTATCAGGGGGGATGCAGAGGCCCTCTCTAAGACAGTGAAGTTCCTTG CAAGCGGGCAAATGATGCGGGAAGCATCTCTGAAGCTTGCATCTACTATGTGTCAACCAC TAGAAAACACCTTGTTGCAGGGAGAATATTACCGTGTTGAATCTACTGGAGCAACCGTGA CTATGAACTCAAGTGTCCAGTTGATTTATTTTTTCTGCTCGAAGCTCCCATCTGATGAGT CTGTTTTATGTACCTTAAATTATGGTTTCCTTCTGTTTCATATCACAAATCATTTTCTGG CACAAGTATCTTATGTTTCTCACGGATAATATCTCTGTCTCAGATACTTTACACCTCTTC CGAGATTCATTATTGACAAGGAACTACGTACTTGCACCTTGTACCTTCCCAATAGCAGCC CTGTGCAGACTGTTAATGCAGAAGGAGAAGTTTCTGCCCTCAAAAAGGCAGTTTGTCTTA AGGCCTGCCGAGAATTACACGCTGTCGGCGCCCTAACAGATTATCTGTTACCAGAATTTG GTTTTCCATGTGAAGAAGAACCCGACATTGTTGTTGAGAAATACCAACACGAGCAGCCTG TGTACTTCCCAGAGGAATTTGTGTACAATTGGTCATCCTTTTCTCGTCTTGGAATATATT ATTGCTATAAGATTTCAGTAGAAGGGTGCTTGAAAACAACTTATTGTCCAAATGACATAC TTCTAGCTGTGAAATGTGATTTGGGACCAGAGTTTGTCTCTACCTCACTTCAATTGTTTG GTGCGCAAGATAATGCTAGTCTTGCCATGAAATATGTGGGAATCATTCATCTGAATCAAG AACAGGTAGTTATGGCCAGAAGGTTTCAGACTACTATTCTTTCTTTGCTTATTAATAAAG ACCATTCTGAGGTCAGTAATGCTGTTAAATACTCCCATGAGATGCAAGTGTCCATTGGAA TTGTCTACCTGCTGCTACCCTTAGTTTCTGGCAAAGTTGATTGGTGCAGTATCAAGTTCT CGACCTCGCAAGTGTATGTTGGCAGTAACAAGGATATCAGACATTGCCATTCTTGTAAAC AAGTTGATTTACTGCAAACAAAAGATGGTCCTCTGTGCAGATGCATGCTTGAAAGTTCCA TTGTTTGCACCCCTCATAATAGCAAATTCTATGCTGTTAATGGGTTCCTTGACTTAAATT CCAAATCTCTTCTGCACCTTCGTGATGGCAGTGCCCTTACCTACATAAACTATTTCAAGA CTAGGCATGGACTCAGTCTAACACATGAAAATCAACCCCTGTTGGCAGCCAGGAGTCCTG TTGAAGTGCGGAATTTCCTCCACAAGCGCCATTATAAAAATAAAAAAGAATCGTGCACTT CACATGGTGTTGAGTTGCCACCTGAGCTCTGCAGACTAGTCATGTCACCAGTCTCTACTA ATACTTTGTACAGCTTCTCGATTATTCCTTCTGTAATGTACCGCATCCAGTGTCTGCTTC TTTCTGCAAAGTTGAAAGATCAACTGGGCCCAATAATGCAGCAGTTTGCCATACCAGCTC TGAAGATTCTAGAAGCAGTAACAACCAAGGAATGCCAAGAGGAATTTTCACAGGAATCAT TAGAAACCCTTGGGGATTCTTTCCTCAAGTACATCGCCACGCAACATCTGTATGTCAAAC ACAAGCTTCAGCATGAGGGGACATTAACCAAGATGAAGAAAAACTTAATCTCGAATGCAG CTCTATGCCAGCTGGCCTGCAACAACAATCTTGTGGGTTACATTCAAGGGGAAGAGTTTA ACCCAAAAGGTTGGATCATTCCAGGGCTTGGTTATGACATGTGTGGTAACAGCAAATTTT CCTTTTTAAGCTCCAATGATATGCACACTTTGAGGAAAATGTCTGTTAGAAGTAAGAGAA TAGCAGATACAGTTGAGGCATTGATTGGAGCCTACCTTGGTGCTGCGGGAGAACAGGCTG CATTTGTTTTCCTAAAATCATTAGGATTGGATATAGGATTTCACAGCACTATTCCACTTG AAAGGAAGATTGTATTAAAATCTGAAAAGTTCATCAACGTGAGAAGTTTGGAAATGATTC TTGGTTATGAGTTCAAGGATACTTCATTGTTGGTGGAAGCATTGACACATGGGTCATACC AGACTGCTGGCACTACTGCATGCTATCAGGTTGATTTGAAAACCTCTGGACCTCTCTATC TTACTTTCATTAGCTCCTCCATATTTTATCTTTCATGGAACTTTCTTCACCAAGCGCAAA TATATGAACACTGTTGCTACACTGAGGCTTGAGTTTCTCGGAGACGCTGTGTTGGACCAT CTCTTCACTATATATTTCTACAATAAGTACCCTGAATGTACTCCAGAATTGTTGACAGAT CTTAGATCTGCTTCCGTTAACAACAATTGCTATGCGCATGCAGCTGCTAAAGCAGGACTA AACAAGCACATTCTTCATTCGTCATTGCCATTGCACGGAAGGATGGCTTACTACTTTGAG AATTTTACTAAGCACCGATTTACAGGTCCATCACATGGTTGGGAAGCTGGCATTGGTCTA CCCAAGGTTCTTGGGGATGTTATTGAATCATTAGCCGGTGCCATTTATCTTGACAGCAAG TATGACAAAGAGGTGGTTTGGAGAAGCATGAAAAAGCTATTGGAGCCTCTTGCGACACCG GAGACGGTTGAGCGTGACCCAGTGAAACTGCTGCAGGAATTTTGTGATCGCAGGTCTTAT AGCAGGTCTTACACAAAGGTCCAGAAAGATGGAGTGTCTTCGGTGGTTGGGGAGGTACAG GTAGAAGGGACTACCTACTCAGCAACTGGAACTGGCCCTGATAAGGTTGTCGCAAAAAAG CTTGCAGCGAAGTTGCTGCTAGAAGATCTGAAGGCTATAGTACCATGACACGCTTGCATT TGCAGATGATGCAATACTGTATAGCTCCTTCCGACTTCACTTGTATTGTGACTAGCCTGT AGGTAGCCTTTTGAAGTTTTTGTGGGAGTATGCGTGTACTTGACAAATGTGCAGCTCAAT CATTGCTTGTGAATATTCAGACTATTGAACTGCACATCTGTGAAGTACGGGCATCGTCTC TCAGAACCATGGTACAGACGATAATGCTACAGTATCCTTAGACTTCTACTTGTACAGTTG TAAGCACAATCTTGAGTGGAAAGCTGGAATATCTTTTTCTCTCCATCGGGCAGTGCAGTG CATGTATCTTTTATTTTTTGAGCGGGGGTACCTTTTGTAGGGCTGGTAATTGTTTTTTTT AAATGGCA
Protein Sequence (501 aa)
>BART1_0-u33637.019 501 150831_barley_pseudomolecules MKYVGIIHLNQEQVVMARRFQTTILSLLINKDHSEVSNAVKYSHEMQVSIGIVYLLLPLV SGKVDWCSIKFSTSQVYVGSNKDIRHCHSCKQVDLLQTKDGPLCRCMLESSIVCTPHNSK FYAVNGFLDLNSKSLLHLRDGSALTYINYFKTRHGLSLTHENQPLLAARSPVEVRNFLHK RHYKNKKESCTSHGVELPPELCRLVMSPVSTNTLYSFSIIPSVMYRIQCLLLSAKLKDQL GPIMQQFAIPALKILEAVTTKECQEEFSQESLETLGDSFLKYIATQHLYVKHKLQHEGTL TKMKKNLISNAALCQLACNNNLVGYIQGEEFNPKGWIIPGLGYDMCGNSKFSFLSSNDMH TLRKMSVRSKRIADTVEALIGAYLGAAGEQAAFVFLKSLGLDIGFHSTIPLERKIVLKSE KFINVRSLEMILGYEFKDTSLLVEALTHGSYQTAGTTACYQVDLKTSGPLYLTFISSSIF YLSWNFLHQAQIYEHCCYTEA